PsrA - UniProtKB: Q9HZJ9 regulon and binding site collection of Pseudomonas aeruginosa PAO1


Sites are listed as curated.

CAAACGCCTGTTTG
CAAACAAACGTTTG
CAAACGTTTGTTTG
GAAACCGGGGTTTC
GAATCGAGCGTTTG
CAAACGGGCGTATG
CAAACGAGCGTTTC
CAAACGCCTGTTTG
CAAACAAACGTTTG
CAAACGTTTGTTTG
GAAACGTATGTTTC

Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

CAAACGCCTGTTTG
CAAACGTTTGTTTG
CAAACGTTTGTTTG
GAAACCCCGGTTTC
CAAACGCTCGATTC
CATACGCCCGTTTG
GAAACGCTCGTTTG
CAAACGCCTGTTTG
CAAACGTTTGTTTG
CAAACGTTTGTTTG
GAAACGTATGTTTC

For the selected transcription factor and species, the list of curated binding sites in the database are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation.

    Genome TF TF conformation Site sequence Site location Experimental techniques Gene regulation Curations PMIDs
    NC_002516.2 Q9HZJ9 not specified CAAACGCCTGTTTG +[564777:564790] Experimental technique details 2D PAGE (ECO:0005614) - Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) PA0506
    ... ... PA0506
    670 15899403
    NC_002516.2 Q9HZJ9 not specified CAAACAAACGTTTG +[3312671:3312684] Experimental technique details 2D PAGE (ECO:0005614) - Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) etfB (PA2952) , etfA (PA2951) , PA2953
    ... ... etfB etfA PA2953
    670 15899403
    NC_002516.2 Q9HZJ9 not specified CAAACGTTTGTTTG -[3312671:3312684] Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) PA2953 , etfB (PA2952) , etfA (PA2951)
    ... ... PA2953 etfB etfA
    670 15899403
    NC_002516.2 Q9HZJ9 not specified GAAACCGGGGTTTC +[4003410:4003423] Experimental technique details Beta-gal reporter assay - Experimental technique details Comparative genomics search (ECO:0005622) - Experimental technique details EMSA (ECO:0001807) mmsR (PA3571) , mmsA (PA3570) , mmsB (PA3569) , PA3568 , PA3572
    ... ... 4000000 mmsR mmsA mmsB PA3568 PA3572
    670 15899403
    NC_002516.2 Q9HZJ9 not specified GAATCGAGCGTTTG -[3376757:3376770] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) foaB (PA3013) , faoA (PA3014) , PA3012 , topA (PA3011) , PA3010 , PA3015
    ... ... foaB faoA PA3012 topA PA3010 PA3015
    683 18524913
    NC_002516.2 Q9HZJ9 not specified CAAACGGGCGTATG -[3376770:3376783] Experimental technique details Beta-gal reporter assay - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details EMSA (ECO:0001807) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) foaB (PA3013) , faoA (PA3014) , PA3015 , PA3010 , topA (PA3011) , PA3012
    ... ... foaB faoA PA3015 PA3010 topA PA3012
    683 18524913
    NC_002516.2 Q9HZJ9 not specified CAAACGAGCGTTTC +[3214063:3214076] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) - Experimental technique details qRT-PCR [RNA] (ECO:0001808) lipA (PA2862) , ligT (PA2861) , PA2860
    ... ... lipA ligT PA2860
    683 18524913
    NC_002516.2 Q9HZJ9 not specified CAAACGCCTGTTTG +[564777:564790] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) PA0506
    ... ... PA0506
    683 18524913
    NC_002516.2 Q9HZJ9 not specified CAAACAAACGTTTG +[3312671:3312684] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) etfB (PA2952) , etfA (PA2951) , PA2953
    ... ... etfB etfA PA2953
    683 18524913
    NC_002516.2 Q9HZJ9 not specified CAAACGTTTGTTTG -[3312671:3312684] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) PA2953 , etfB (PA2952) , etfA (PA2951)
    ... ... PA2953 etfB etfA
    683 18524913
    NC_002516.2 Q9HZJ9 not specified GAAACGTATGTTTC -[3367699:3367712] Experimental technique details Consensus search (ECO:0005624) - Experimental technique details DNA-array expression analysis (ECO:0005525) psrA (PA3006) , lexA (PA3007) , PA3008
    ... ... psrA lexA PA3008
    683 18524913

    All binding sites in split view are combined and a sequence logo is generated. Note that it may contain binding site sequences from different transcription factors and different species. To see individiual sequence logos and curation details go to split view.


    Sites are listed as curated.

    CAAACGCCTGTTTG
    CAAACAAACGTTTG
    CAAACGTTTGTTTG
    GAAACCGGGGTTTC
    GAATCGAGCGTTTG
    CAAACGGGCGTATG
    CAAACGAGCGTTTC
    CAAACGCCTGTTTG
    CAAACAAACGTTTG
    CAAACGTTTGTTTG
    GAAACGTATGTTTC

    Sites are listed after the alignment process. For alignment of variable-length binding sites, LASAGNA is used.

    CAAACGCCTGTTTG
    CAAACGTTTGTTTG
    CAAACGTTTGTTTG
    GAAACCCCGGTTTC
    CAAACGCTCGATTC
    CATACGCCCGTTTG
    GAAACGCTCGTTTG
    CAAACGCCTGTTTG
    CAAACGTTTGTTTG
    CAAACGTTTGTTTG
    GAAACGTATGTTTC
    Download data in FASTA format.
    Download data in TSV (tab-separated-value) format. For each binding site, all sources of evidence (i.e. experimental techniques and publication information) are combined into one record.
    Download raw data in TSV format. All reported sites are exported individually.
    Download data in Attribute-Relation File Format (ARFF).
    Download Position-Specific-Frequency-Matrix of the motif in TRANSFAC format.
    Download Position-Specific-Frequency-Matrix of the motif in JASPAR format.
    Download Position-Specific-Frequency-Matrix of the motif in raw FASTA format. The matrix consists of four columns in the order A C G T.